craiglagegit / poisson_ccd Goto Github PK

Dear Craig Lage,

it seems that an HDF5 library mismatch is crashing Poisson_CCD (Abort trap: 6). Unfortunately "brew install hdf5" installs version 1.13, while it seems Poisson_CCD expects HDF5 version 1.12.1. Other formulae with brew provided by "brew search hdf5" are hdf5-mpi, [email protected], and [email protected].

I have been unable to build the HDF5 source code successfully. Would it be easy to update the POISSION_CCD code to support HDF5 version 1.13? Thank you.

(base) callisto:Poisson_CCD ioannisa$ src/Poisson data/smallpixel/smallpixel.cfg
There will be 4 total multi-grids
Intrinsic carrier concentration Ni = 1.07437e-09 in code units, kT/q = 0.014993 Volts
Finished Reading config file
Seed = 77
Saving coordinate grids.
Saving coordinate grids at all scales.
Finished Building Arrays.
Finished Setting ICs. Setup time = 0.000 seconds.
--- Starting VCycle 1 / 1 of step 1 / 1.
> Warning! HDF5 library version mismatched error
> The HDF5 header files used to compile this application do not match
> the version used by the HDF5 library to which this application is linked.
Data corruption or segmentation faults may occur if the application continues.
This can happen when an application was compiled by one version of HDF5 but
linked with a different version of static or shared HDF5 library.
You should recompile the application or check your shared library related
settings such as 'LD_LIBRARY_PATH'.
You can, at your own risk, disable this warning by setting the environment
variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.
Setting it to 2 or higher will suppress the warning messages tota
Poisson_CCD_output_log.txt
lly.
> Headers are 1.12.1, library is 1.13.0